Rabbits train easiest when they are older and after they are neutered. Some may train as babies but they often forget those potty habits with the onset of hormones. So in the meantime, limit his space.
Several weeks after his neuter, he should take to training on his own. All they need is the proper setup and they'll train themselves. It is a natural habit for them to potty in one location.
A few stray poos should be expected when they free-roam. But those are dry and odorless and easy enough to sweep up. It is the rare rabbit indeed that is 100% with his poos. Urine should be 100% once trained.
Here's some more from my website:
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rabbitsindoors.weebly.com